/* This file is part of the Gudhi Library. The Gudhi library * (Geometric Understanding in Higher Dimensions) is a generic C++ * library for computational topology. * * Author(s): Mathieu Carriere * * Copyright (C) 2018 INRIA (France) * * This program is free software: you can redistribute it and/or modify * it under the terms of the GNU General Public License as published by * the Free Software Foundation, either version 3 of the License, or * (at your option) any later version. * * This program is distributed in the hope that it will be useful, * but WITHOUT ANY WARRANTY; without even the implied warranty of * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the * GNU General Public License for more details. * * You should have received a copy of the GNU General Public License * along with this program. If not, see . */ #ifndef PERSISTENCE_WEIGHTED_GAUSSIAN_H_ #define PERSISTENCE_WEIGHTED_GAUSSIAN_H_ // gudhi include #include // standard include #include #include #include #include #include #include #include #include #include #include #include double pi = boost::math::constants::pi(); using PD = std::vector >; using Weight = std::function) >; namespace Gudhi { namespace Persistence_representations { class Persistence_weighted_gaussian{ protected: PD diagram; Weight weight; double sigma; int approx; public: Persistence_weighted_gaussian(PD _diagram){diagram = _diagram; sigma = 1.0; approx = 1000; weight = arctan_weight;} Persistence_weighted_gaussian(PD _diagram, double _sigma, int _approx, Weight _weight){diagram = _diagram; sigma = _sigma; approx = _approx; weight = _weight;} PD get_diagram(){return this->diagram;} double get_sigma(){return this->sigma;} int get_approx(){return this->approx;} Weight get_weight(){return this->weight;} // ********************************** // Utils. // ********************************** static double pss_weight(std::pair p){ if(p.second > p.first) return 1; else return -1; } static double arctan_weight(std::pair p){ return atan(p.second - p.first); } std::vector > Fourier_feat(PD diag, std::vector > z, Weight weight = arctan_weight){ int md = diag.size(); std::vector > b; int mz = z.size(); for(int i = 0; i < mz; i++){ double d1 = 0; double d2 = 0; double zx = z[i].first; double zy = z[i].second; for(int j = 0; j < md; j++){ double x = diag[j].first; double y = diag[j].second; d1 += weight(diag[j])*cos(x*zx + y*zy); d2 += weight(diag[j])*sin(x*zx + y*zy); } b.emplace_back(d1,d2); } return b; } std::vector > random_Fourier(double sigma, int m = 1000){ std::normal_distribution distrib(0,1); std::vector > z; std::random_device rd; for(int i = 0; i < m; i++){ std::mt19937 e1(rd()); std::mt19937 e2(rd()); double zx = distrib(e1); double zy = distrib(e2); z.emplace_back(zx/sigma,zy/sigma); } return z; } // ********************************** // Scalar product + distance. // ********************************** double compute_scalar_product(Persistence_weighted_gaussian second){ PD diagram1 = this->diagram; PD diagram2 = second.diagram; if(this->approx == -1){ int num_pts1 = diagram1.size(); int num_pts2 = diagram2.size(); double k = 0; for(int i = 0; i < num_pts1; i++) for(int j = 0; j < num_pts2; j++) k += this->weight(diagram1[i])*this->weight(diagram2[j])*exp(-((diagram1[i].first - diagram2[j].first) * (diagram1[i].first - diagram2[j].first) + (diagram1[i].second - diagram2[j].second) * (diagram1[i].second - diagram2[j].second)) /(2*this->sigma*this->sigma)); return k; } else{ std::vector > z = random_Fourier(this->sigma, this->approx); std::vector > b1 = Fourier_feat(diagram1,z,this->weight); std::vector > b2 = Fourier_feat(diagram2,z,this->weight); double d = 0; for(int i = 0; i < this->approx; i++) d += b1[i].first*b2[i].first + b1[i].second*b2[i].second; return d/this->approx; } } double distance(Persistence_weighted_gaussian second, double power = 1) { if(this->sigma != second.get_sigma() || this->approx != second.get_approx()){ std::cout << "Error: different representations!" << std::endl; return 0; } else return std::pow(this->compute_scalar_product(*this) + second.compute_scalar_product(second)-2*this->compute_scalar_product(second), power/2.0); } }; } // namespace Persistence_weighted_gaussian } // namespace Gudhi #endif // PERSISTENCE_WEIGHTED_GAUSSIAN_H_